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        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

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        About MultiQC

        This report was generated using MultiQC, version 1.9

        You can see a YouTube video describing how to use MultiQC reports here: https://youtu.be/qPbIlO_KWN0

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        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2023-11-30, 17:47 based on data in: /mnt/lustre/scratch/migueldc/Analysis/Raw Reads/fastqc


        General Statistics

        Showing 402/402 rows and 4/5 columns.
        Sample Name% Dups% GCLengthM Seqs
        ITS-100_S133_L001_R1_001
        98.5%
        50%
        285 bp
        0.1
        ITS-100_S133_L001_R2_001
        98.6%
        50%
        292 bp
        0.1
        ITS-101_S145_L001_R1_001
        98.2%
        51%
        287 bp
        0.1
        ITS-101_S145_L001_R2_001
        98.5%
        51%
        294 bp
        0.1
        ITS-102_S157_L001_R1_001
        98.5%
        50%
        286 bp
        0.1
        ITS-102_S157_L001_R2_001
        98.7%
        50%
        293 bp
        0.1
        ITS-103_S169_L001_R1_001
        98.1%
        51%
        288 bp
        0.1
        ITS-103_S169_L001_R2_001
        98.5%
        51%
        293 bp
        0.1
        ITS-104_S181_L001_R1_001
        98.6%
        50%
        286 bp
        0.1
        ITS-104_S181_L001_R2_001
        98.7%
        50%
        294 bp
        0.1
        ITS-105_S98_L001_R1_001
        98.0%
        50%
        290 bp
        0.1
        ITS-105_S98_L001_R2_001
        98.3%
        50%
        296 bp
        0.1
        ITS-106_S110_L001_R1_001
        98.3%
        50%
        287 bp
        0.1
        ITS-106_S110_L001_R2_001
        98.5%
        51%
        294 bp
        0.1
        ITS-107_S122_L001_R1_001
        98.1%
        50%
        288 bp
        0.0
        ITS-107_S122_L001_R2_001
        98.2%
        50%
        295 bp
        0.0
        ITS-108_S134_L001_R1_001
        98.2%
        50%
        288 bp
        0.1
        ITS-108_S134_L001_R2_001
        98.4%
        50%
        294 bp
        0.1
        ITS-109_S146_L001_R1_001
        97.7%
        50%
        290 bp
        0.0
        ITS-109_S146_L001_R2_001
        97.6%
        50%
        296 bp
        0.0
        ITS-110_S158_L001_R1_001
        98.9%
        50%
        286 bp
        0.1
        ITS-110_S158_L001_R2_001
        98.7%
        50%
        293 bp
        0.1
        ITS-111_S170_L001_R1_001
        98.2%
        51%
        288 bp
        0.1
        ITS-111_S170_L001_R2_001
        98.5%
        51%
        295 bp
        0.1
        ITS-112_S182_L001_R1_001
        97.9%
        51%
        289 bp
        0.1
        ITS-112_S182_L001_R2_001
        98.1%
        51%
        295 bp
        0.1
        ITS-113_S99_L001_R1_001
        98.3%
        51%
        288 bp
        0.1
        ITS-113_S99_L001_R2_001
        98.5%
        51%
        294 bp
        0.1
        ITS-114_S111_L001_R1_001
        98.0%
        50%
        289 bp
        0.1
        ITS-114_S111_L001_R2_001
        98.3%
        50%
        295 bp
        0.1
        ITS-115_S123_L001_R1_001
        98.2%
        50%
        288 bp
        0.1
        ITS-115_S123_L001_R2_001
        98.2%
        50%
        295 bp
        0.1
        ITS-116_S135_L001_R1_001
        97.9%
        48%
        290 bp
        0.1
        ITS-116_S135_L001_R2_001
        97.8%
        48%
        296 bp
        0.1
        ITS-117_S147_L001_R1_001
        97.7%
        50%
        291 bp
        0.0
        ITS-117_S147_L001_R2_001
        97.9%
        50%
        296 bp
        0.0
        ITS-118_S159_L001_R1_001
        98.7%
        50%
        286 bp
        0.1
        ITS-118_S159_L001_R2_001
        98.5%
        50%
        294 bp
        0.1
        ITS-119_S171_L001_R1_001
        98.2%
        50%
        289 bp
        0.1
        ITS-119_S171_L001_R2_001
        98.2%
        50%
        295 bp
        0.1
        ITS-120_S183_L001_R1_001
        98.5%
        50%
        287 bp
        0.1
        ITS-120_S183_L001_R2_001
        98.6%
        50%
        294 bp
        0.1
        ITS-121_S100_L001_R1_001
        97.4%
        51%
        290 bp
        0.0
        ITS-121_S100_L001_R2_001
        98.1%
        51%
        295 bp
        0.0
        ITS-122_S112_L001_R1_001
        98.3%
        50%
        287 bp
        0.1
        ITS-122_S112_L001_R2_001
        98.4%
        50%
        293 bp
        0.1
        ITS-123_S124_L001_R1_001
        97.8%
        50%
        291 bp
        0.0
        ITS-123_S124_L001_R2_001
        97.7%
        51%
        297 bp
        0.0
        ITS-124_S136_L001_R1_001
        98.2%
        51%
        288 bp
        0.0
        ITS-124_S136_L001_R2_001
        98.4%
        51%
        295 bp
        0.0
        ITS-125_S148_L001_R1_001
        97.0%
        50%
        291 bp
        0.0
        ITS-125_S148_L001_R2_001
        93.5%
        51%
        299 bp
        0.0
        ITS-126_S160_L001_R1_001
        98.1%
        50%
        288 bp
        0.1
        ITS-126_S160_L001_R2_001
        98.6%
        50%
        294 bp
        0.1
        ITS-198_S242_L001_R1_001
        98.9%
        45%
        300 bp
        0.1
        ITS-198_S242_L001_R2_001
        97.9%
        45%
        301 bp
        0.1
        ITS-199_S251_L001_R1_001
        98.8%
        49%
        298 bp
        0.1
        ITS-199_S251_L001_R2_001
        98.1%
        48%
        300 bp
        0.1
        ITS-200_S260_L001_R1_001
        98.9%
        46%
        300 bp
        0.1
        ITS-200_S260_L001_R2_001
        98.2%
        45%
        300 bp
        0.1
        ITS-201_S271_L001_R1_001
        97.2%
        46%
        301 bp
        0.1
        ITS-201_S271_L001_R2_001
        97.0%
        45%
        301 bp
        0.1
        ITS-202_S204_L001_R1_001
        98.4%
        43%
        300 bp
        0.0
        ITS-202_S204_L001_R2_001
        97.8%
        41%
        301 bp
        0.0
        ITS-203_S214_L001_R1_001
        98.9%
        42%
        301 bp
        0.0
        ITS-203_S214_L001_R2_001
        98.1%
        39%
        301 bp
        0.0
        ITS-204_S224_L001_R1_001
        98.8%
        42%
        300 bp
        0.0
        ITS-204_S224_L001_R2_001
        97.8%
        39%
        301 bp
        0.0
        ITS-205_S234_L001_R1_001
        98.9%
        42%
        300 bp
        0.0
        ITS-205_S234_L001_R2_001
        98.1%
        39%
        301 bp
        0.0
        ITS-206_S243_L001_R1_001
        99.0%
        45%
        301 bp
        0.0
        ITS-206_S243_L001_R2_001
        98.5%
        44%
        301 bp
        0.0
        ITS-207_S252_L001_R1_001
        98.7%
        42%
        299 bp
        0.0
        ITS-207_S252_L001_R2_001
        98.4%
        40%
        300 bp
        0.0
        ITS-208_S261_L001_R1_001
        99.0%
        45%
        301 bp
        0.1
        ITS-208_S261_L001_R2_001
        98.5%
        44%
        301 bp
        0.1
        ITS-209_S195_L001_R1_001
        98.6%
        45%
        295 bp
        0.1
        ITS-209_S195_L001_R2_001
        98.1%
        44%
        296 bp
        0.1
        ITS-210_S205_L001_R1_001
        98.4%
        45%
        296 bp
        0.0
        ITS-210_S205_L001_R2_001
        98.1%
        44%
        297 bp
        0.0
        ITS-211_S215_L001_R1_001
        99.0%
        45%
        301 bp
        0.1
        ITS-211_S215_L001_R2_001
        98.4%
        44%
        301 bp
        0.1
        ITS-212_S225_L001_R1_001
        98.6%
        45%
        301 bp
        0.0
        ITS-212_S225_L001_R2_001
        98.3%
        44%
        301 bp
        0.0
        ITS-213_S235_L001_R1_001
        98.7%
        42%
        300 bp
        0.1
        ITS-213_S235_L001_R2_001
        98.2%
        40%
        300 bp
        0.1
        ITS-214_S244_L001_R1_001
        99.0%
        45%
        301 bp
        0.1
        ITS-214_S244_L001_R2_001
        98.5%
        44%
        301 bp
        0.1
        ITS-215_S253_L001_R1_001
        98.6%
        45%
        290 bp
        0.1
        ITS-215_S253_L001_R2_001
        98.3%
        44%
        292 bp
        0.1
        ITS-216_S262_L001_R1_001
        98.6%
        46%
        299 bp
        0.0
        ITS-216_S262_L001_R2_001
        98.0%
        45%
        300 bp
        0.0
        ITS-217_S196_L001_R1_001
        98.5%
        47%
        297 bp
        0.1
        ITS-217_S196_L001_R2_001
        98.1%
        46%
        299 bp
        0.1
        ITS-218_S206_L001_R1_001
        98.4%
        48%
        294 bp
        0.1
        ITS-218_S206_L001_R2_001
        98.2%
        47%
        297 bp
        0.1
        ITS-219_S216_L001_R1_001
        98.8%
        42%
        300 bp
        0.0
        ITS-219_S216_L001_R2_001
        98.1%
        40%
        301 bp
        0.0
        ITS-220_S226_L001_R1_001
        98.9%
        42%
        298 bp
        0.0
        ITS-220_S226_L001_R2_001
        98.2%
        40%
        301 bp
        0.0
        ITS-221_S236_L001_R1_001
        98.6%
        49%
        288 bp
        0.0
        ITS-221_S236_L001_R2_001
        98.3%
        49%
        295 bp
        0.0
        ITS-222_S245_L001_R1_001
        98.8%
        42%
        300 bp
        0.0
        ITS-222_S245_L001_R2_001
        97.9%
        40%
        301 bp
        0.0
        ITS-223_S1_L001_R1_001
        98.4%
        45%
        301 bp
        0.1
        ITS-223_S1_L001_R2_001
        98.0%
        44%
        301 bp
        0.1
        ITS-224_S263_L001_R1_001
        98.3%
        45%
        252 bp
        0.1
        ITS-224_S263_L001_R2_001
        98.4%
        45%
        260 bp
        0.1
        ITS-225_S197_L001_R1_001
        99.0%
        45%
        301 bp
        0.1
        ITS-225_S197_L001_R2_001
        98.2%
        44%
        301 bp
        0.1
        ITS-226_S207_L001_R1_001
        98.8%
        45%
        300 bp
        0.1
        ITS-226_S207_L001_R2_001
        98.4%
        44%
        300 bp
        0.1
        ITS-227_S217_L001_R1_001
        98.9%
        45%
        300 bp
        0.0
        ITS-227_S217_L001_R2_001
        98.3%
        44%
        300 bp
        0.0
        ITS-228_S227_L001_R1_001
        98.7%
        45%
        301 bp
        0.0
        ITS-228_S227_L001_R2_001
        98.0%
        44%
        301 bp
        0.0
        ITS-229_S237_L001_R1_001
        98.8%
        45%
        298 bp
        0.1
        ITS-229_S237_L001_R2_001
        98.1%
        44%
        298 bp
        0.1
        ITS-230_S246_L001_R1_001
        98.7%
        45%
        301 bp
        0.1
        ITS-230_S246_L001_R2_001
        98.3%
        44%
        301 bp
        0.1
        ITS-231_S255_L001_R1_001
        98.8%
        45%
        297 bp
        0.1
        ITS-231_S255_L001_R2_001
        98.1%
        44%
        297 bp
        0.1
        ITS-232_S264_L001_R1_001
        98.8%
        46%
        299 bp
        0.0
        ITS-232_S264_L001_R2_001
        98.1%
        45%
        300 bp
        0.0
        ITS-233_S198_L001_R1_001
        98.7%
        49%
        298 bp
        0.0
        ITS-233_S198_L001_R2_001
        98.0%
        48%
        299 bp
        0.0
        ITS-234_S208_L001_R1_001
        99.0%
        45%
        301 bp
        0.1
        ITS-234_S208_L001_R2_001
        98.5%
        44%
        301 bp
        0.1
        ITS-235_S218_L001_R1_001
        98.6%
        46%
        299 bp
        0.1
        ITS-235_S218_L001_R2_001
        98.2%
        45%
        300 bp
        0.1
        ITS-236_S228_L001_R1_001
        98.5%
        44%
        301 bp
        0.0
        ITS-236_S228_L001_R2_001
        98.0%
        43%
        301 bp
        0.0
        ITS-237_S238_L001_R1_001
        98.9%
        42%
        298 bp
        0.1
        ITS-237_S238_L001_R2_001
        98.4%
        39%
        301 bp
        0.1
        ITS-238_S247_L001_R1_001
        98.9%
        42%
        300 bp
        0.0
        ITS-238_S247_L001_R2_001
        98.2%
        39%
        301 bp
        0.0
        ITS-239_S256_L001_R1_001
        99.0%
        42%
        301 bp
        0.1
        ITS-239_S256_L001_R2_001
        98.3%
        39%
        301 bp
        0.1
        ITS-240_S265_L001_R1_001
        98.9%
        45%
        301 bp
        0.1
        ITS-240_S265_L001_R2_001
        98.5%
        44%
        301 bp
        0.1
        ITS-241_S199_L001_R1_001
        99.1%
        45%
        299 bp
        0.1
        ITS-241_S199_L001_R2_001
        98.7%
        44%
        299 bp
        0.1
        ITS-242_S209_L001_R1_001
        98.9%
        45%
        300 bp
        0.1
        ITS-242_S209_L001_R2_001
        98.4%
        45%
        301 bp
        0.1
        ITS-243_S219_L001_R1_001
        98.6%
        45%
        296 bp
        0.1
        ITS-243_S219_L001_R2_001
        98.2%
        45%
        297 bp
        0.1
        ITS-244_S272_L001_R1_001
        96.9%
        46%
        299 bp
        0.1
        ITS-244_S272_L001_R2_001
        96.9%
        45%
        299 bp
        0.1
        ITS-245_S239_L001_R1_001
        98.4%
        45%
        272 bp
        0.1
        ITS-245_S239_L001_R2_001
        98.4%
        44%
        276 bp
        0.1
        ITS-246_S248_L001_R1_001
        99.0%
        45%
        301 bp
        0.1
        ITS-246_S248_L001_R2_001
        98.5%
        45%
        301 bp
        0.1
        ITS-247_S257_L001_R1_001
        98.6%
        45%
        295 bp
        0.1
        ITS-247_S257_L001_R2_001
        98.3%
        45%
        296 bp
        0.1
        ITS-248_S266_L001_R1_001
        98.6%
        45%
        300 bp
        0.1
        ITS-248_S266_L001_R2_001
        98.3%
        44%
        300 bp
        0.1
        ITS-249_S200_L001_R1_001
        98.3%
        45%
        277 bp
        0.1
        ITS-249_S200_L001_R2_001
        98.2%
        44%
        280 bp
        0.1
        ITS-250_S210_L001_R1_001
        98.9%
        45%
        301 bp
        0.0
        ITS-250_S210_L001_R2_001
        98.2%
        44%
        301 bp
        0.0
        ITS-251_S220_L001_R1_001
        98.6%
        49%
        300 bp
        0.0
        ITS-251_S220_L001_R2_001
        97.9%
        47%
        300 bp
        0.0
        ITS-252_S230_L001_R1_001
        97.4%
        47%
        295 bp
        0.0
        ITS-252_S230_L001_R2_001
        97.5%
        47%
        298 bp
        0.0
        ITS-253_S240_L001_R1_001
        99.0%
        45%
        301 bp
        0.1
        ITS-253_S240_L001_R2_001
        98.5%
        44%
        301 bp
        0.1
        ITS-254_S249_L001_R1_001
        98.8%
        42%
        301 bp
        0.0
        ITS-254_S249_L001_R2_001
        98.2%
        39%
        301 bp
        0.0
        ITS-255_S258_L001_R1_001
        99.1%
        42%
        301 bp
        0.1
        ITS-255_S258_L001_R2_001
        98.1%
        39%
        301 bp
        0.1
        ITS-256_S267_L001_R1_001
        98.8%
        42%
        301 bp
        0.0
        ITS-256_S267_L001_R2_001
        98.2%
        39%
        301 bp
        0.0
        ITS-257_S201_L001_R1_001
        99.0%
        42%
        301 bp
        0.1
        ITS-257_S201_L001_R2_001
        98.1%
        39%
        300 bp
        0.1
        ITS-258_S211_L001_R1_001
        98.9%
        45%
        301 bp
        0.1
        ITS-258_S211_L001_R2_001
        98.4%
        44%
        301 bp
        0.1
        ITS-259_S221_L001_R1_001
        98.2%
        44%
        278 bp
        0.1
        ITS-259_S221_L001_R2_001
        98.0%
        44%
        281 bp
        0.1
        ITS-260_S231_L001_R1_001
        98.8%
        45%
        301 bp
        0.1
        ITS-260_S231_L001_R2_001
        98.1%
        44%
        301 bp
        0.1
        ITS-261_S241_L001_R1_001
        99.1%
        41%
        301 bp
        0.1
        ITS-261_S241_L001_R2_001
        98.2%
        38%
        301 bp
        0.1
        ITS-262_S250_L001_R1_001
        98.9%
        45%
        301 bp
        0.1
        ITS-262_S250_L001_R2_001
        98.2%
        44%
        301 bp
        0.1
        ITS-263_S259_L001_R1_001
        98.8%
        44%
        301 bp
        0.1
        ITS-263_S259_L001_R2_001
        98.1%
        43%
        301 bp
        0.1
        ITS-264_S268_L001_R1_001
        99.0%
        45%
        301 bp
        0.1
        ITS-264_S268_L001_R2_001
        98.1%
        44%
        301 bp
        0.1
        ITS-265_S202_L001_R1_001
        99.1%
        45%
        301 bp
        0.1
        ITS-265_S202_L001_R2_001
        98.4%
        44%
        301 bp
        0.1
        ITS-266_S212_L001_R1_001
        98.7%
        45%
        301 bp
        0.1
        ITS-266_S212_L001_R2_001
        98.2%
        44%
        301 bp
        0.1
        ITS-267_S222_L001_R1_001
        98.9%
        45%
        301 bp
        0.1
        ITS-267_S222_L001_R2_001
        98.3%
        44%
        301 bp
        0.1
        ITS-55_S79_L001_R1_001
        97.8%
        49%
        294 bp
        0.1
        ITS-55_S79_L001_R2_001
        97.4%
        49%
        297 bp
        0.1
        ITS-56_S91_L001_R1_001
        98.8%
        50%
        286 bp
        0.1
        ITS-56_S91_L001_R2_001
        98.4%
        50%
        294 bp
        0.1
        ITS-57_S8_L001_R1_001
        97.7%
        51%
        288 bp
        0.1
        ITS-57_S8_L001_R2_001
        97.9%
        52%
        295 bp
        0.1
        ITS-58_S20_L001_R1_001
        97.6%
        51%
        289 bp
        0.1
        ITS-58_S20_L001_R2_001
        97.8%
        52%
        295 bp
        0.1
        ITS-59_S32_L001_R1_001
        98.1%
        50%
        289 bp
        0.1
        ITS-59_S32_L001_R2_001
        98.1%
        51%
        295 bp
        0.1
        ITS-60_S44_L001_R1_001
        98.1%
        52%
        286 bp
        0.0
        ITS-60_S44_L001_R2_001
        98.1%
        52%
        294 bp
        0.0
        ITS-61_S56_L001_R1_001
        97.7%
        50%
        290 bp
        0.0
        ITS-61_S56_L001_R2_001
        97.7%
        50%
        296 bp
        0.0
        ITS-62_S68_L001_R1_001
        98.6%
        50%
        287 bp
        0.1
        ITS-62_S68_L001_R2_001
        98.4%
        50%
        294 bp
        0.1
        ITS-63_S270_L001_R1_001
        95.1%
        52%
        288 bp
        0.1
        ITS-63_S270_L001_R2_001
        96.9%
        52%
        289 bp
        0.1
        ITS-64_S92_L001_R1_001
        98.2%
        50%
        287 bp
        0.1
        ITS-64_S92_L001_R2_001
        98.3%
        50%
        294 bp
        0.1
        ITS-65_S9_L001_R1_001
        98.2%
        51%
        288 bp
        0.1
        ITS-65_S9_L001_R2_001
        98.2%
        51%
        295 bp
        0.1
        ITS-66_S21_L001_R1_001
        98.1%
        50%
        287 bp
        0.1
        ITS-66_S21_L001_R2_001
        98.1%
        50%
        294 bp
        0.1
        ITS-67_S33_L001_R1_001
        98.0%
        51%
        290 bp
        0.1
        ITS-67_S33_L001_R2_001
        98.0%
        51%
        296 bp
        0.1
        ITS-68_S45_L001_R1_001
        98.4%
        50%
        288 bp
        0.1
        ITS-68_S45_L001_R2_001
        98.2%
        51%
        295 bp
        0.1
        ITS-69_S57_L001_R1_001
        98.0%
        51%
        290 bp
        0.1
        ITS-69_S57_L001_R2_001
        97.9%
        51%
        297 bp
        0.1
        ITS-70_S69_L001_R1_001
        98.0%
        51%
        289 bp
        0.1
        ITS-70_S69_L001_R2_001
        98.1%
        52%
        295 bp
        0.1
        ITS-71_S81_L001_R1_001
        98.1%
        51%
        289 bp
        0.1
        ITS-71_S81_L001_R2_001
        98.1%
        51%
        295 bp
        0.1
        ITS-72_S93_L001_R1_001
        97.7%
        51%
        291 bp
        0.1
        ITS-72_S93_L001_R2_001
        97.9%
        51%
        296 bp
        0.1
        ITS-73_S10_L001_R1_001
        98.2%
        49%
        291 bp
        0.1
        ITS-73_S10_L001_R2_001
        98.0%
        49%
        296 bp
        0.1
        ITS-74_S22_L001_R1_001
        98.6%
        50%
        286 bp
        0.1
        ITS-74_S22_L001_R2_001
        98.3%
        50%
        293 bp
        0.1
        ITS-75_S34_L001_R1_001
        98.1%
        51%
        288 bp
        0.1
        ITS-75_S34_L001_R2_001
        98.2%
        51%
        295 bp
        0.1
        ITS-76_S46_L001_R1_001
        97.9%
        51%
        289 bp
        0.1
        ITS-76_S46_L001_R2_001
        98.0%
        52%
        295 bp
        0.1
        ITS-77_S58_L001_R1_001
        97.9%
        50%
        289 bp
        0.1
        ITS-77_S58_L001_R2_001
        98.0%
        51%
        295 bp
        0.1
        ITS-78_S70_L001_R1_001
        98.3%
        50%
        289 bp
        0.1
        ITS-78_S70_L001_R2_001
        98.3%
        51%
        295 bp
        0.1
        ITS-79_S82_L001_R1_001
        97.9%
        50%
        289 bp
        0.1
        ITS-79_S82_L001_R2_001
        98.0%
        50%
        295 bp
        0.1
        ITS-80_S94_L001_R1_001
        98.0%
        48%
        293 bp
        0.1
        ITS-80_S94_L001_R2_001
        97.6%
        48%
        296 bp
        0.1
        ITS-81_S11_L001_R1_001
        98.3%
        50%
        291 bp
        0.1
        ITS-81_S11_L001_R2_001
        98.2%
        50%
        296 bp
        0.1
        ITS-82_S23_L001_R1_001
        98.4%
        50%
        287 bp
        0.1
        ITS-82_S23_L001_R2_001
        98.5%
        50%
        293 bp
        0.1
        ITS-83_S35_L001_R1_001
        98.4%
        51%
        288 bp
        0.1
        ITS-83_S35_L001_R2_001
        98.4%
        51%
        295 bp
        0.1
        ITS-84_S47_L001_R1_001
        98.2%
        50%
        288 bp
        0.1
        ITS-84_S47_L001_R2_001
        98.4%
        50%
        294 bp
        0.1
        ITS-85_S59_L001_R1_001
        98.0%
        51%
        290 bp
        0.1
        ITS-85_S59_L001_R2_001
        98.2%
        51%
        296 bp
        0.1
        ITS-86_S71_L001_R1_001
        98.2%
        51%
        288 bp
        0.1
        ITS-86_S71_L001_R2_001
        98.3%
        51%
        294 bp
        0.1
        ITS-87_S83_L001_R1_001
        98.1%
        50%
        291 bp
        0.1
        ITS-87_S83_L001_R2_001
        98.3%
        50%
        296 bp
        0.1
        ITS-88_S95_L001_R1_001
        98.2%
        51%
        288 bp
        0.1
        ITS-88_S95_L001_R2_001
        98.4%
        51%
        294 bp
        0.1
        ITS-89_S12_L001_R1_001
        98.3%
        50%
        288 bp
        0.1
        ITS-89_S12_L001_R2_001
        98.4%
        50%
        295 bp
        0.1
        ITS-90_S24_L001_R1_001
        98.1%
        51%
        290 bp
        0.1
        ITS-90_S24_L001_R2_001
        98.5%
        51%
        295 bp
        0.1
        ITS-91_S36_L001_R1_001
        98.1%
        49%
        294 bp
        0.1
        ITS-91_S36_L001_R2_001
        97.4%
        49%
        298 bp
        0.1
        ITS-92_S48_L001_R1_001
        98.6%
        50%
        286 bp
        0.1
        ITS-92_S48_L001_R2_001
        98.4%
        50%
        294 bp
        0.1
        ITS-93_S60_L001_R1_001
        98.5%
        51%
        289 bp
        0.2
        ITS-93_S60_L001_R2_001
        98.4%
        52%
        296 bp
        0.2
        ITS-94_S72_L001_R1_001
        98.1%
        51%
        290 bp
        0.1
        ITS-94_S72_L001_R2_001
        98.2%
        52%
        295 bp
        0.1
        ITS-95_S84_L001_R1_001
        98.3%
        51%
        290 bp
        0.1
        ITS-95_S84_L001_R2_001
        98.5%
        51%
        295 bp
        0.1
        ITS-96_S96_L001_R1_001
        98.1%
        50%
        289 bp
        0.1
        ITS-96_S96_L001_R2_001
        98.5%
        50%
        295 bp
        0.1
        ITS-97_S97_L001_R1_001
        98.2%
        49%
        292 bp
        0.1
        ITS-97_S97_L001_R2_001
        97.8%
        49%
        296 bp
        0.1
        ITS-98_S109_L001_R1_001
        98.2%
        48%
        290 bp
        0.1
        ITS-98_S109_L001_R2_001
        98.2%
        48%
        295 bp
        0.1
        ITS-99_S121_L001_R1_001
        97.9%
        50%
        290 bp
        0.1
        ITS-99_S121_L001_R2_001
        98.2%
        50%
        295 bp
        0.1
        LM-CONV-18C_S79_L001_R1_001
        98.8%
        41%
        276 bp
        0.1
        LM-CONV-18C_S79_L001_R2_001
        97.9%
        39%
        276 bp
        0.1
        LM-CONV-Control_S44_L001_R1_001
        98.8%
        41%
        276 bp
        0.1
        LM-CONV-Control_S44_L001_R2_001
        98.0%
        39%
        275 bp
        0.1
        LM-CONV-NH4_S56_L001_R1_001
        98.7%
        41%
        276 bp
        0.1
        LM-CONV-NH4_S56_L001_R2_001
        97.8%
        39%
        276 bp
        0.1
        LM-CONV-SO2_S68_L001_R1_001
        98.5%
        41%
        276 bp
        0.1
        LM-CONV-SO2_S68_L001_R2_001
        97.7%
        39%
        275 bp
        0.1
        LM-ECO-18C_S32_L001_R1_001
        98.3%
        45%
        276 bp
        0.1
        LM-ECO-18C_S32_L001_R2_001
        97.5%
        43%
        276 bp
        0.1
        LM-ECO-Control_S99_L001_R1_001
        98.5%
        46%
        275 bp
        0.1
        LM-ECO-Control_S99_L001_R2_001
        97.7%
        43%
        275 bp
        0.1
        LM-ECO-NH4_S109_L001_R1_001
        98.2%
        46%
        276 bp
        0.1
        LM-ECO-NH4_S109_L001_R2_001
        97.0%
        43%
        276 bp
        0.1
        M-CONV-18C_S89_L001_R1_001
        98.5%
        46%
        276 bp
        0.1
        M-CONV-18C_S89_L001_R2_001
        98.3%
        43%
        276 bp
        0.1
        M-CONV-Control_S67_L001_R1_001
        98.6%
        46%
        274 bp
        0.1
        M-CONV-Control_S67_L001_R2_001
        98.2%
        43%
        276 bp
        0.1
        M-CONV-NH4_S78_L001_R1_001
        98.8%
        46%
        276 bp
        0.1
        M-CONV-NH4_S78_L001_R2_001
        98.3%
        43%
        276 bp
        0.1
        M-ECO-18C_S55_L001_R1_001
        98.3%
        44%
        276 bp
        0.1
        M-ECO-18C_S55_L001_R2_001
        98.1%
        41%
        276 bp
        0.1
        M-ECO-Control_S31_L001_R1_001
        98.1%
        42%
        276 bp
        0.1
        M-ECO-Control_S31_L001_R2_001
        98.2%
        39%
        276 bp
        0.1
        M-ECO-NH4_S43_L001_R1_001
        98.1%
        43%
        276 bp
        0.1
        M-ECO-NH4_S43_L001_R2_001
        98.3%
        40%
        276 bp
        0.1
        R1-CONV-18C_S58_L001_R1_001
        98.0%
        44%
        255 bp
        0.1
        R1-CONV-18C_S58_L001_R2_001
        97.9%
        43%
        255 bp
        0.1
        R1-CONV-Control_S34_L001_R1_001
        98.1%
        45%
        262 bp
        0.1
        R1-CONV-Control_S34_L001_R2_001
        97.9%
        43%
        261 bp
        0.1
        R1-CONV-NH4_S46_L001_R1_001
        98.1%
        46%
        254 bp
        0.1
        R1-CONV-NH4_S46_L001_R2_001
        97.9%
        44%
        253 bp
        0.1
        R1-ECO-18C_S111_L001_R1_001
        98.8%
        46%
        274 bp
        0.1
        R1-ECO-18C_S111_L001_R2_001
        97.8%
        44%
        274 bp
        0.1
        R1-ECO-Control_S80_L001_R1_001
        99.0%
        46%
        275 bp
        0.1
        R1-ECO-Control_S80_L001_R2_001
        97.9%
        44%
        274 bp
        0.1
        R1-ECO-NH4_S91_L001_R1_001
        98.7%
        46%
        275 bp
        0.1
        R1-ECO-NH4_S91_L001_R2_001
        97.8%
        44%
        275 bp
        0.1
        R1-ECO-SO2_S101_L001_R1_001
        98.6%
        44%
        276 bp
        0.1
        R1-ECO-SO2_S101_L001_R2_001
        98.0%
        43%
        276 bp
        0.1
        R2-CONV-18C_S47_L001_R1_001
        98.5%
        47%
        262 bp
        0.1
        R2-CONV-18C_S47_L001_R2_001
        97.5%
        44%
        262 bp
        0.1
        R2-CONV-Control_S102_L001_R1_001
        98.5%
        47%
        258 bp
        0.1
        R2-CONV-Control_S102_L001_R2_001
        97.6%
        45%
        258 bp
        0.1
        R2-CONV-NH4_S112_L001_R1_001
        98.5%
        47%
        258 bp
        0.1
        R2-CONV-NH4_S112_L001_R2_001
        97.4%
        45%
        258 bp
        0.1
        R2-CONV-SO2_S35_L001_R1_001
        98.7%
        46%
        276 bp
        0.1
        R2-CONV-SO2_S35_L001_R2_001
        97.6%
        45%
        274 bp
        0.1
        R2-ECO-18C_S92_L001_R1_001
        98.2%
        46%
        274 bp
        0.1
        R2-ECO-18C_S92_L001_R2_001
        97.5%
        44%
        274 bp
        0.1
        R2-ECO-Control_S70_L001_R1_001
        98.1%
        46%
        276 bp
        0.1
        R2-ECO-Control_S70_L001_R2_001
        97.2%
        44%
        276 bp
        0.1
        R2-ECO-NH4_S81_L001_R1_001
        98.8%
        46%
        274 bp
        0.1
        R2-ECO-NH4_S81_L001_R2_001
        97.6%
        44%
        276 bp
        0.1
        R3A-CONV-18C_S113_L001_R1_001
        98.9%
        46%
        274 bp
        0.1
        R3A-CONV-18C_S113_L001_R2_001
        97.8%
        44%
        274 bp
        0.1
        R3A-CONV-Control_S93_L001_R1_001
        98.7%
        46%
        276 bp
        0.1
        R3A-CONV-Control_S93_L001_R2_001
        97.8%
        44%
        276 bp
        0.1
        R3A-CONV-NH4_S103_L001_R1_001
        98.8%
        46%
        274 bp
        0.1
        R3A-CONV-NH4_S103_L001_R2_001
        97.7%
        44%
        274 bp
        0.1
        R3A-ECO-18C_S82_L001_R1_001
        98.9%
        46%
        275 bp
        0.1
        R3A-ECO-18C_S82_L001_R2_001
        97.8%
        44%
        275 bp
        0.1
        R3A-ECO-Control_S59_L001_R1_001
        98.9%
        46%
        275 bp
        0.1
        R3A-ECO-Control_S59_L001_R2_001
        97.8%
        44%
        275 bp
        0.1
        R3A-ECO-NH4_S71_L001_R1_001
        98.6%
        46%
        275 bp
        0.1
        R3A-ECO-NH4_S71_L001_R2_001
        97.5%
        44%
        274 bp
        0.1
        R3B-CONV-18C_S104_L001_R1_001
        98.7%
        44%
        275 bp
        0.1
        R3B-CONV-18C_S104_L001_R2_001
        97.7%
        42%
        274 bp
        0.1
        R3B-CONV-Control_S72_L001_R1_001
        98.3%
        44%
        276 bp
        0.1
        R3B-CONV-Control_S72_L001_R2_001
        97.4%
        42%
        275 bp
        0.1
        R3B-CONV-NH4_S83_L001_R1_001
        98.5%
        44%
        276 bp
        0.1
        R3B-CONV-NH4_S83_L001_R2_001
        97.5%
        42%
        275 bp
        0.1
        R3B-CONV-SO2_S94_L001_R1_001
        98.5%
        41%
        276 bp
        0.1
        R3B-CONV-SO2_S94_L001_R2_001
        97.9%
        40%
        275 bp
        0.1
        R3B-ECO-18C_S60_L001_R1_001
        99.0%
        46%
        274 bp
        0.1
        R3B-ECO-18C_S60_L001_R2_001
        97.9%
        43%
        274 bp
        0.1
        R3B-ECO-Control_S36_L001_R1_001
        99.1%
        46%
        276 bp
        0.1
        R3B-ECO-Control_S36_L001_R2_001
        98.1%
        44%
        276 bp
        0.1
        R3B-ECO-NH4_S48_L001_R1_001
        99.0%
        46%
        274 bp
        0.1
        R3B-ECO-NH4_S48_L001_R2_001
        98.0%
        44%
        274 bp
        0.1
        R3C-ECO-18C_S61_L001_R1_001
        99.0%
        46%
        275 bp
        0.1
        R3C-ECO-18C_S61_L001_R2_001
        98.0%
        43%
        275 bp
        0.1
        R3C-ECO-Control_S114_L001_R1_001
        99.0%
        46%
        276 bp
        0.1
        R3C-ECO-Control_S114_L001_R2_001
        97.9%
        44%
        276 bp
        0.1
        R3C-ECO-NH4_S37_L001_R1_001
        99.0%
        46%
        275 bp
        0.1
        R3C-ECO-NH4_S37_L001_R2_001
        98.0%
        44%
        274 bp
        0.1
        R3C-ECO-SO2_S49_L001_R1_001
        98.4%
        43%
        276 bp
        0.1
        R3C-ECO-SO2_S49_L001_R2_001
        97.8%
        42%
        275 bp
        0.1
        RdG-CONV-18C_S69_L001_R1_001
        98.7%
        49%
        276 bp
        0.1
        RdG-CONV-18C_S69_L001_R2_001
        97.7%
        47%
        274 bp
        0.1
        RdG-CONV-Control_S33_L001_R1_001
        98.6%
        49%
        276 bp
        0.1
        RdG-CONV-Control_S33_L001_R2_001
        97.6%
        47%
        275 bp
        0.1
        RdG-CONV-NH4_S45_L001_R1_001
        98.7%
        49%
        276 bp
        0.1
        RdG-CONV-NH4_S45_L001_R2_001
        97.8%
        47%
        274 bp
        0.1
        RdG-CONV-SO2_S57_L001_R1_001
        98.8%
        49%
        276 bp
        0.1
        RdG-CONV-SO2_S57_L001_R2_001
        97.7%
        47%
        274 bp
        0.1
        RdG-ECO-18C_S110_L001_R1_001
        99.0%
        46%
        276 bp
        0.1
        RdG-ECO-18C_S110_L001_R2_001
        98.3%
        43%
        276 bp
        0.1
        RdG-ECO-Control_S90_L001_R1_001
        98.6%
        45%
        276 bp
        0.1
        RdG-ECO-Control_S90_L001_R2_001
        98.3%
        43%
        276 bp
        0.1
        RdG-ECO-NH4_S100_L001_R1_001
        98.8%
        46%
        274 bp
        0.1
        RdG-ECO-NH4_S100_L001_R2_001
        98.3%
        43%
        274 bp
        0.1
        VLP-CONV-18C_S108_L001_R1_001
        98.8%
        41%
        276 bp
        0.1
        VLP-CONV-18C_S108_L001_R2_001
        97.8%
        40%
        275 bp
        0.1
        VLP-CONV-Control_S77_L001_R1_001
        98.8%
        41%
        276 bp
        0.1
        VLP-CONV-Control_S77_L001_R2_001
        97.9%
        40%
        275 bp
        0.1
        VLP-CONV-NH4_S88_L001_R1_001
        98.7%
        41%
        276 bp
        0.1
        VLP-CONV-NH4_S88_L001_R2_001
        97.9%
        40%
        276 bp
        0.1
        VLP-CONV-SO2_S98_L001_R1_001
        98.9%
        41%
        276 bp
        0.1
        VLP-CONV-SO2_S98_L001_R2_001
        97.9%
        39%
        275 bp
        0.1
        VLP-ECO-18C_S66_L001_R1_001
        98.6%
        41%
        276 bp
        0.1
        VLP-ECO-18C_S66_L001_R2_001
        97.7%
        39%
        275 bp
        0.1
        VLP-ECO-Control_S30_L001_R1_001
        98.8%
        41%
        276 bp
        0.1
        VLP-ECO-Control_S30_L001_R2_001
        97.8%
        39%
        275 bp
        0.1
        VLP-ECO-NH4_S42_L001_R1_001
        98.8%
        41%
        276 bp
        0.1
        VLP-ECO-NH4_S42_L001_R2_001
        97.9%
        39%
        276 bp
        0.1
        VLP-ECO-SO2_S54_L001_R1_001
        98.8%
        41%
        276 bp
        0.1
        VLP-ECO-SO2_S54_L001_R2_001
        97.9%
        40%
        276 bp
        0.1

        FastQC

        FastQC is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.

        Sequence Counts

        Sequence counts for each sample. Duplicate read counts are an estimate only.

        This plot show the total number of reads, broken down into unique and duplicate if possible (only more recent versions of FastQC give duplicate info).

        You can read more about duplicate calculation in the FastQC documentation. A small part has been copied here for convenience:

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Quality Histograms

        The mean quality value across each base position in the read.

        To enable multiple samples to be plotted on the same graph, only the mean quality scores are plotted (unlike the box plots seen in FastQC reports).

        Taken from the FastQC help:

        The y-axis on the graph shows the quality scores. The higher the score, the better the base call. The background of the graph divides the y axis into very good quality calls (green), calls of reasonable quality (orange), and calls of poor quality (red). The quality of calls on most platforms will degrade as the run progresses, so it is common to see base calls falling into the orange area towards the end of a read.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Sequence Quality Scores

        The number of reads with average quality scores. Shows if a subset of reads has poor quality.

        From the FastQC help:

        The per sequence quality score report allows you to see if a subset of your sequences have universally low quality values. It is often the case that a subset of sequences will have universally poor quality, however these should represent only a small percentage of the total sequences.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Base Sequence Content

        The proportion of each base position for which each of the four normal DNA bases has been called.

        To enable multiple samples to be shown in a single plot, the base composition data is shown as a heatmap. The colours represent the balance between the four bases: an even distribution should give an even muddy brown colour. Hover over the plot to see the percentage of the four bases under the cursor.

        To see the data as a line plot, as in the original FastQC graph, click on a sample track.

        From the FastQC help:

        Per Base Sequence Content plots out the proportion of each base position in a file for which each of the four normal DNA bases has been called.

        In a random library you would expect that there would be little to no difference between the different bases of a sequence run, so the lines in this plot should run parallel with each other. The relative amount of each base should reflect the overall amount of these bases in your genome, but in any case they should not be hugely imbalanced from each other.

        It's worth noting that some types of library will always produce biased sequence composition, normally at the start of the read. Libraries produced by priming using random hexamers (including nearly all RNA-Seq libraries) and those which were fragmented using transposases inherit an intrinsic bias in the positions at which reads start. This bias does not concern an absolute sequence, but instead provides enrichement of a number of different K-mers at the 5' end of the reads. Whilst this is a true technical bias, it isn't something which can be corrected by trimming and in most cases doesn't seem to adversely affect the downstream analysis.

        Click a sample row to see a line plot for that dataset.
        Rollover for sample name
        Position: -
        %T: -
        %C: -
        %A: -
        %G: -

        Per Sequence GC Content

        The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content.

        From the FastQC help:

        This module measures the GC content across the whole length of each sequence in a file and compares it to a modelled normal distribution of GC content.

        In a normal random library you would expect to see a roughly normal distribution of GC content where the central peak corresponds to the overall GC content of the underlying genome. Since we don't know the the GC content of the genome the modal GC content is calculated from the observed data and used to build a reference distribution.

        An unusually shaped distribution could indicate a contaminated library or some other kinds of biased subset. A normal distribution which is shifted indicates some systematic bias which is independent of base position. If there is a systematic bias which creates a shifted normal distribution then this won't be flagged as an error by the module since it doesn't know what your genome's GC content should be.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Base N Content

        The percentage of base calls at each position for which an N was called.

        From the FastQC help:

        If a sequencer is unable to make a base call with sufficient confidence then it will normally substitute an N rather than a conventional base call. This graph shows the percentage of base calls at each position for which an N was called.

        It's not unusual to see a very low proportion of Ns appearing in a sequence, especially nearer the end of a sequence. However, if this proportion rises above a few percent it suggests that the analysis pipeline was unable to interpret the data well enough to make valid base calls.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Length Distribution

        The distribution of fragment sizes (read lengths) found. See the FastQC help

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Duplication Levels

        The relative level of duplication found for every sequence.

        From the FastQC Help:

        In a diverse library most sequences will occur only once in the final set. A low level of duplication may indicate a very high level of coverage of the target sequence, but a high level of duplication is more likely to indicate some kind of enrichment bias (eg PCR over amplification). This graph shows the degree of duplication for every sequence in a library: the relative number of sequences with different degrees of duplication.

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        In a properly diverse library most sequences should fall into the far left of the plot in both the red and blue lines. A general level of enrichment, indicating broad oversequencing in the library will tend to flatten the lines, lowering the low end and generally raising other categories. More specific enrichments of subsets, or the presence of low complexity contaminants will tend to produce spikes towards the right of the plot.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Overrepresented sequences

        The total amount of overrepresented sequences found in each library.

        FastQC calculates and lists overrepresented sequences in FastQ files. It would not be possible to show this for all samples in a MultiQC report, so instead this plot shows the number of sequences categorized as over represented.

        Sometimes, a single sequence may account for a large number of reads in a dataset. To show this, the bars are split into two: the first shows the overrepresented reads that come from the single most common sequence. The second shows the total count from all remaining overrepresented sequences.

        From the FastQC Help:

        A normal high-throughput library will contain a diverse set of sequences, with no individual sequence making up a tiny fraction of the whole. Finding that a single sequence is very overrepresented in the set either means that it is highly biologically significant, or indicates that the library is contaminated, or not as diverse as you expected.

        FastQC lists all of the sequences which make up more than 0.1% of the total. To conserve memory only sequences which appear in the first 100,000 sequences are tracked to the end of the file. It is therefore possible that a sequence which is overrepresented but doesn't appear at the start of the file for some reason could be missed by this module.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Adapter Content

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position.

        Note that only samples with ≥ 0.1% adapter contamination are shown.

        There may be several lines per sample, as one is shown for each adapter detected in the file.

        From the FastQC Help:

        The plot shows a cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. Once a sequence has been seen in a read it is counted as being present right through to the end of the read so the percentages you see will only increase as the read length goes on.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Status Checks

        Status for each FastQC section showing whether results seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        FastQC assigns a status for each section of the report. These give a quick evaluation of whether the results of the analysis seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        It is important to stress that although the analysis results appear to give a pass/fail result, these evaluations must be taken in the context of what you expect from your library. A 'normal' sample as far as FastQC is concerned is random and diverse. Some experiments may be expected to produce libraries which are biased in particular ways. You should treat the summary evaluations therefore as pointers to where you should concentrate your attention and understand why your library may not look random and diverse.

        Specific guidance on how to interpret the output of each module can be found in the relevant report section, or in the FastQC help.

        In this heatmap, we summarise all of these into a single heatmap for a quick overview. Note that not all FastQC sections have plots in MultiQC reports, but all status checks are shown in this heatmap.

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